Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003189.1 Kokia drynarioides strain JFW-HI SEQ_115801, whole genome shotgun sequence

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000

Length: 17439
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35


Found at i:5804 original size:24 final size:24

Alignment explanation


    Indices: 5777--5857  Score: 126
    Period size: 24  Copynumber: 3.4  Consensus size: 24

       5767 AATCTTTTAC

                          *         
       5777 TTAAACTCTGTTTAATTGTTTCAA
          1 TTAAACTCTGTTTATTTGTTTCAA

                             *      
       5801 TTAAACTCTGTTTATTTTTTTCAA
          1 TTAAACTCTGTTTATTTGTTTCAA

                                 * *
       5825 TTAAACTCTGTTTATTTGTTTGAG
          1 TTAAACTCTGTTTATTTGTTTCAA

                     
       5849 TTAAACTCT
          1 TTAAACTCT

       5858 TATTAGTCTA


Statistics
Matches: 52,  Mismatches: 5, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  24   52  1.00

ACGTcount: A:0.26, C:0.12, G:0.09, T:0.53


Consensus pattern (24 bp):   
TTAAACTCTGTTTATTTGTTTCAA

Found at i:6219 original size:173 final size:173

Alignment explanation


    Indices: 5928--6274  Score: 649
    Period size: 173  Copynumber: 2.0  Consensus size: 173

       5918 TTTACAACCT

                         *   *                                               
       5928 TAGAAAGAACACTCATTGGAAAAACTTATTAGAGTTTAGAACTCCTAACACTTTTGGATAATTTA
          1 TAGAAAGAACACTAATTAGAAAAACTTATTAGAGTTTAGAACTCCTAACACTTTTGGATAATTTA

                                                   *                         
       5993 GTGTTTACGTTTTGAGGGTTCTTTATTTTTTGGTTTTTAGGGTTTAATTTTTATCTCCATCTTTT
         66 GTGTTTACGTTTTGAGGGTTCTTTATTTTTTGGTTTTTAAGGTTTAATTTTTATCTCCATCTTTT

                                                       
       6058 GTACTCTTCATTCTTTTGCCACTATAGTAAAATTATCTTTGCC
        131 GTACTCTTCATTCTTTTGCCACTATAGTAAAATTATCTTTGCC

                                  *                                          
       6101 TAGAAAGAACACTAATTAGAAACACTTATTAGAGTTTAGAACTCCTAACACTTTTGGATAATTTA
          1 TAGAAAGAACACTAATTAGAAAAACTTATTAGAGTTTAGAACTCCTAACACTTTTGGATAATTTA

                                                          *                  
       6166 GTGTTTACGTTTTGAGGGTTCTTTATTTTTTGGTTTTTAAGGTTTAGTTTTTATCTCCATCTTTT
         66 GTGTTTACGTTTTGAGGGTTCTTTATTTTTTGGTTTTTAAGGTTTAATTTTTATCTCCATCTTTT

                                                       
       6231 GTACTCTTCATTCTTTTGCCACTATAGTAAAATTATCTTTGCC
        131 GTACTCTTCATTCTTTTGCCACTATAGTAAAATTATCTTTGCC

             
       6274 T
          1 T

       6275 GTGGTTTTTT


Statistics
Matches: 169,  Mismatches: 5, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
 173  169  1.00

ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46


Consensus pattern (173 bp):   
TAGAAAGAACACTAATTAGAAAAACTTATTAGAGTTTAGAACTCCTAACACTTTTGGATAATTTA
GTGTTTACGTTTTGAGGGTTCTTTATTTTTTGGTTTTTAAGGTTTAATTTTTATCTCCATCTTTT
GTACTCTTCATTCTTTTGCCACTATAGTAAAATTATCTTTGCC
Done.